genome.fa.s8.2.7.7.80.10.50.1000.14.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  14  of  135  ( 16172 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6033423--6033483	23	2.5	24	82	12	63	24	22	19	32	1.97
6039286--6039314	9	3.2	9	100	0	58	31	10	10	48	1.71
6042285--6042554	130	2.1	131	99	0	533	41	11	5	40	1.66
6043023--6043067	13	3.4	13	82	14	56	40	33	6	20	1.78
6043608--6043724	62	1.9	60	86	5	164	51	3	2	42	1.32
6047574--6047690	47	2.5	47	81	2	128	25	21	17	35	1.95
6048563--6048607	21	2.0	23	83	8	58	51	6	4	37	1.49
6053352--6053468	47	2.5	47	78	0	126	27	20	14	37	1.92
6056540--6056570	5	6.2	5	100	0	62	19	19	19	41	1.90
6058109--6058147	16	2.4	16	84	12	53	56	5	0	38	1.22
6059805--6059835	15	2.0	16	93	6	55	16	0	45	38	1.47
6060125--6060164	14	2.9	13	85	10	53	2	0	50	47	1.14
6060099--6060161	21	3.0	21	75	9	58	6	0	49	44	1.28
6060617--6061286	230	2.9	230	93	0	1115	28	17	19	34	1.95
6061489--6061532	19	2.3	19	84	0	61	31	43	2	22	1.66
6063837--6063898	20	3.2	20	88	4	99	48	6	4	40	1.50
6063837--6063976	37	3.7	37	81	3	156	49	9	5	36	1.57
6067989--6068153	44	3.9	42	85	2	213	35	24	20	20	1.95
6067989--6068153	43	3.8	43	87	2	233	35	24	20	20	1.95
6068128--6068327	42	4.7	42	91	2	303	22	22	22	33	1.98
6070208--6070237	6	5.0	6	100	0	60	33	0	0	66	0.92
6070357--6070405	23	2.2	22	85	7	64	32	14	10	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6070383--6070461	35	2.2	36	86	4	106	22	22	16	37	1.93
6072458--6072714	131	2.0	131	96	0	478	24	22	14	38	1.91
6076737--6076858	64	1.9	65	86	1	174	34	13	22	28	1.93
6076954--6077059	38	2.8	38	82	2	124	36	16	15	32	1.89
6077733--6077780	22	2.2	21	88	3	69	50	18	16	14	1.79
6081828--6081889	31	2.1	29	84	6	79	35	9	11	43	1.73
6083225--6083294	31	2.3	31	92	0	113	31	11	12	44	1.78
6101489--6101669	44	4.1	43	67	19	97	30	21	24	22	1.99
6101355--6102051	132	5.3	132	86	4	930	28	20	25	24	1.99
6106078--6106387	154	2.0	155	99	0	613	45	5	2	47	1.39
6107579--6107613	18	1.9	18	88	0	52	62	8	20	8	1.49
6112271--6112698	217	2.0	217	94	0	748	27	18	18	35	1.95
6114435--6114476	17	2.4	17	80	11	50	50	0	0	50	1.00
6115794--6115896	42	2.4	43	80	6	111	27	17	23	32	1.97
6115756--6115914	43	3.7	42	73	13	137	23	18	27	30	1.97
6124457--6124501	23	2.0	23	82	8	56	33	4	11	51	1.58
6125081--6125252	42	4.1	41	82	1	200	29	19	20	31	1.97
6125109--6125263	84	1.9	84	87	4	233	28	19	21	30	1.98
6128879--6129028	42	3.5	43	73	11	130	24	19	26	29	1.98
6128879--6129037	43	3.7	43	73	12	139	23	18	27	30	1.98
6131021--6131056	18	1.9	19	94	5	65	22	5	5	66	1.34
6132396--6132622	41	5.5	41	86	1	303	18	24	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6132732--6132782	26	2.0	26	84	0	66	58	5	11	23	1.55
6132894--6132926	14	2.3	15	94	5	59	30	0	33	36	1.58
6132946--6132998	14	3.8	14	84	0	61	24	0	41	33	1.55
6132958--6133010	14	3.8	14	82	0	61	24	0	43	32	1.55
6133025--6133177	82	1.9	82	86	1	218	28	1	26	44	1.62
6134034--6134420	147	2.7	144	87	4	539	42	13	12	31	1.82
6134436--6134474	21	1.9	21	84	5	53	30	41	0	28	1.57
6140025--6140146	43	2.9	43	83	1	138	24	21	28	25	1.99
6140042--6140157	43	2.7	43	82	0	142	24	22	28	25	1.99
6140621--6140661	17	2.6	17	88	11	61	48	0	0	51	1.00
6140880--6140911	17	2.0	17	88	11	50	62	15	21	0	1.32
6149712--6149757	23	2.0	24	86	4	67	47	0	21	30	1.51
6149879--6150019	38	3.6	39	80	5	142	23	19	26	31	1.98
6155216--6155356	68	2.1	69	91	1	230	41	12	10	35	1.78
6165200--6165392	102	1.9	101	92	1	323	27	12	25	33	1.92
6167399--6167473	3	25.0	3	94	0	132	64	0	1	34	1.02
6167679--6167735	3	19.0	3	96	0	105	64	0	0	35	0.93
6172843--6172871	14	2.1	14	100	0	58	20	41	0	37	1.53
6174303--6174740	214	2.0	215	94	0	779	40	16	7	35	1.78
6176985--6177018	17	2.1	16	88	5	50	32	0	8	58	1.29
6183184--6183317	70	1.9	70	83	3	171	47	14	12	24	1.79
6206431--6206557	4	31.8	4	83	0	119	27	9	24	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6206573--6206607	17	2.1	17	100	0	70	54	11	17	17	1.71
6215954--6215993	17	2.4	17	87	8	55	50	0	35	15	1.44
6222899--6223222	165	2.0	164	96	0	603	44	4	21	28	1.73
6223929--6223975	17	2.7	18	77	6	53	51	0	25	23	1.49
6224979--6225066	9	9.4	9	69	20	56	62	5	2	29	1.30
6228094--6228139	22	2.1	22	84	4	58	26	4	6	63	1.38
6244786--6244827	18	2.3	18	87	0	66	16	19	7	57	1.62
6247696--6247733	19	2.0	19	94	0	67	10	18	21	50	1.76
6248320--6248606	101	2.8	101	92	1	468	23	17	27	32	1.96
6248320--6248603	51	5.6	50	79	10	283	23	17	27	31	1.97
6248527--6248607	26	3.2	25	66	22	60	22	13	28	35	1.92
6252783--6253069	50	5.6	50	80	3	254	26	20	29	23	1.99
6253420--6253462	22	2.0	22	90	0	68	13	27	16	41	1.86
6258692--6258735	23	1.9	23	85	0	61	52	0	2	45	1.13
6263161--6263773	51	12.5	51	80	9	697	28	23	18	29	1.98
6263148--6263773	97	6.4	97	86	4	798	27	23	18	30	1.98
6274316--6274349	16	2.1	16	88	0	50	44	20	14	20	1.87
6275931--6275973	20	2.2	20	83	8	52	67	2	6	23	1.27
6277097--6277160	13	4.8	13	77	11	67	35	18	3	42	1.66
6282973--6283016	17	2.6	16	83	16	54	45	0	34	20	1.51
6289467--6289529	25	2.4	27	78	10	76	34	0	3	61	1.12
6289564--6289623	8	7.6	8	73	16	54	35	0	3	61	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6289565--6289623	15	3.8	15	82	6	64	35	0	3	61	1.13
6291007--6291047	12	3.2	12	83	12	55	19	26	0	53	1.45
6291014--6291050	14	2.6	14	95	4	65	16	24	0	59	1.37
6294396--6294498	46	2.2	46	92	0	170	30	7	17	44	1.77
6311641--6311685	22	2.0	23	82	4	56	42	0	0	57	0.98
6312114--6312139	5	5.2	5	100	0	52	42	19	19	19	1.90
6312943--6312973	9	3.4	9	90	0	53	38	22	12	25	1.90
6319853--6319882	15	2.1	15	93	6	53	50	6	0	43	1.28
6321108--6321132	13	1.9	13	100	0	50	88	0	12	0	0.53
6321874--6321941	19	3.5	19	74	9	66	32	2	0	64	1.08
6324287--6324311	7	3.6	7	100	0	50	28	0	12	60	1.32
6324960--6324994	18	1.9	18	94	0	61	25	31	8	34	1.86
6325482--6325594	25	4.7	25	72	18	114	41	0	13	44	1.49
6325447--6325594	70	2.1	69	96	2	271	41	0	13	44	1.49
6325590--6325869	23	10.6	23	69	22	85	45	27	0	27	1.57
6325610--6325892	29	10.1	29	79	13	326	45	26	0	27	1.57
6325594--6325892	52	5.5	52	79	14	318	45	27	0	27	1.57
6325610--6325892	59	5.1	57	82	11	340	45	26	0	27	1.57
6334947--6334984	11	3.2	12	85	11	51	7	21	2	68	1.28
6334957--6334983	11	2.5	11	100	0	54	7	22	0	70	1.12
6335694--6335813	41	2.9	42	77	6	127	24	25	34	16	1.96
6339257--6339319	19	3.3	19	93	0	108	12	23	30	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6342601--6342821	104	2.1	104	80	2	246	23	22	31	22	1.99
6344596--6344636	19	2.1	20	86	13	59	39	4	0	56	1.21
6347888--6347940	3	17.3	3	96	3	97	32	1	0	66	1.03
6353739--6354051	165	1.9	160	84	7	418	38	13	12	35	1.83
6362474--6362511	19	2.0	20	84	5	51	36	5	10	47	1.61
6371298--6371437	40	3.5	40	93	0	244	29	22	21	27	1.99
6372105--6372155	21	2.4	21	100	0	102	43	15	25	15	1.86
6375883--6376003	28	4.3	28	84	0	152	28	23	23	23	1.99
6376299--6376464	27	6.1	27	84	4	165	18	18	20	42	1.89
6376299--6376464	81	2.0	81	87	0	233	18	18	20	42	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135